• scRNA-seq
  • Initial Processing
  • UMAP/Clustering
  • Marker gene Analyais
  • Differentially Expressed Genes Analyais
  • Cell Type annotation
  • Functional analysis
  • 2024-06-16
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scRNA-seq

Workflow


Link to the previous version


Initial Processing

  • Raw data processing
    • cellranger
    • doublet removal

  • Raw data filitering by UMI & mitochondrial content



UMAP/Clustering

  • UMAP/Clustering



  • Simple Gene Ontology analysis by cluster marker genes



Marker gene Analyais

  • Marker genes summary report






Differentially Expressed Genes Analyais

  • DEG report



Cell Type annotation

  • Immune Cell Type Annotation by scType


  • Manual Annotation by marker genes



Functional analysis

  • Population shift

  • Gene signature scoring


  • Differentially Exprssed Genes Analysis between selected groups

  • GSVA